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package test.hdf5lib;
import static org.junit.Assert.assertTrue;
import static org.junit.Assert.fail;
import java.io.File;
import ncsa.hdf.hdf5lib.H5;
import ncsa.hdf.hdf5lib.HDF5Constants;
import ncsa.hdf.hdf5lib.exceptions.HDF5Exception;
import ncsa.hdf.hdf5lib.exceptions.HDF5LibraryException;
import org.junit.After;
import org.junit.Before;
import org.junit.Test;
public class TestH5Dplist {
private static final String H5_FILE = "test.h5";
private static final int DIM_X = 4;
private static final int DIM_Y = 7;
private static final int EDIM_X = 6;
private static final int EDIM_Y = 10;
private static final int CHUNK_X = 4;
private static final int CHUNK_Y = 4;
private static final int NDIMS = 2;
private static final int FILLVAL = 99;
private static final int RANK = 2;
int H5fid = -1;
int H5dsid = -1;
int H5did = -1;
int H5dcpl_id = -1;
long[] H5dims = { DIM_X, DIM_Y };
long[] H5extdims = { EDIM_X, EDIM_Y };
long[] H5chunk_dims = { CHUNK_X, CHUNK_Y };
long[] H5maxdims = { HDF5Constants.H5S_UNLIMITED, HDF5Constants.H5S_UNLIMITED };
private final void _deleteFile(String filename) {
File file = new File(filename);
if (file.exists()) {
try {file.delete();} catch (SecurityException e) {}
}
}
private final void _createPDataset(int fid, int dsid, String name, int dcpl_val) {
try {
H5dcpl_id = H5.H5Pcreate(dcpl_val);
}
catch (Exception err) {
err.printStackTrace();
fail("H5.H5Pcreate: " + err);
}
assertTrue("TestH5Dplist._createPDataset: ", H5dcpl_id > 0);
// Set the chunk size.
try {
H5.H5Pset_chunk(H5dcpl_id, NDIMS, H5chunk_dims);
}
catch (Exception e) {
e.printStackTrace();
}
// Set the fill value for the dataset
try {
int[] fill_value = { FILLVAL };
H5.H5Pset_fill_value(H5dcpl_id, HDF5Constants.H5T_NATIVE_INT, fill_value);
}
catch (Exception e) {
e.printStackTrace();
}
// Set the allocation time to "early". This way we can be sure
// that reading from the dataset immediately after creation will
// return the fill value.
try {
H5.H5Pset_alloc_time(H5dcpl_id, HDF5Constants.H5D_ALLOC_TIME_EARLY);
}
catch (Exception e) {
e.printStackTrace();
}
_createDataset(H5fid, H5dsid, "dset", H5dcpl_id, HDF5Constants.H5P_DEFAULT);
}
private final void _createDataset(int fid, int dsid, String name, int dcpl, int dapl) {
try {
H5did = H5.H5Dcreate(fid, name,
HDF5Constants.H5T_STD_I32BE, dsid,
HDF5Constants.H5P_DEFAULT, dcpl, dapl);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Dcreate: " + err);
}
assertTrue("TestH5Dplist._createDataset: ",H5did > 0);
}
@Before
public void createH5file() throws NullPointerException, HDF5Exception {
assertTrue("H5 open ids is 0",H5.getOpenIDCount()==0);
try {
H5fid = H5.H5Fcreate(H5_FILE, HDF5Constants.H5F_ACC_TRUNC,
HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
H5dsid = H5.H5Screate_simple(RANK, H5dims, H5maxdims);
}
catch (Throwable err) {
err.printStackTrace();
fail("TestH5Dplist.createH5file: " + err);
}
assertTrue("TestH5Dplist.createH5file: H5.H5Fcreate: ",H5fid > 0);
assertTrue("TestH5Dplist.createH5file: H5.H5Screate_simple: ",H5dsid > 0);
H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL);
}
@After
public void deleteH5file() throws HDF5LibraryException {
if (H5dcpl_id >= 0)
try {H5.H5Pclose(H5dcpl_id);} catch (Exception ex) {}
if (H5did > 0)
try {H5.H5Dclose(H5did);} catch (Exception ex) {}
if (H5dsid > 0)
try {H5.H5Sclose(H5dsid);} catch (Exception ex) {}
if (H5fid > 0)
try {H5.H5Fclose(H5fid);} catch (Exception ex) {}
_deleteFile(H5_FILE);
}
@Test
public void testH5Dset_extent() {
int[][] write_dset_data = new int[DIM_X][DIM_Y];
int[][] read_dset_data = new int[DIM_X][DIM_Y];
int[][] extend_dset_data = new int[EDIM_X][EDIM_Y];
// Initialize the dataset.
for (int indx = 0; indx < DIM_X; indx++)
for (int jndx = 0; jndx < DIM_Y; jndx++)
write_dset_data[indx][jndx] = indx * jndx - jndx;
_createPDataset(H5fid, H5dsid, "dset", HDF5Constants.H5P_DATASET_CREATE);
// Read values from the dataset, which has not been written to yet.
try {
H5.H5Dread(H5did, HDF5Constants.H5T_NATIVE_INT,
HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL,
HDF5Constants.H5P_DEFAULT, read_dset_data);
}
catch (Exception e) {
e.printStackTrace();
}
assertTrue("testH5Dset_extent - H5.H5Dread: ", read_dset_data[0][0] == 99);
// Write the data to the dataset.
try {
H5.H5Dwrite(H5did, HDF5Constants.H5T_NATIVE_INT,
HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL,
HDF5Constants.H5P_DEFAULT, write_dset_data);
}
catch (Exception e) {
e.printStackTrace();
}
// Read the data back.
try {
H5.H5Dread(H5did, HDF5Constants.H5T_NATIVE_INT,
HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL,
HDF5Constants.H5P_DEFAULT, read_dset_data);
}
catch (Exception e) {
e.printStackTrace();
}
assertTrue("testH5Dset_extent - H5.H5Dread: ", read_dset_data[3][6] == 12);
// Extend the dataset.
try {
H5.H5Dset_extent(H5did, H5extdims);
}
catch (Exception e) {
e.printStackTrace();
}
// Read from the extended dataset.
try {
H5.H5Dread(H5did, HDF5Constants.H5T_NATIVE_INT,
HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL,
HDF5Constants.H5P_DEFAULT, extend_dset_data);
}
catch (Exception e) {
e.printStackTrace();
}
assertTrue("testH5Dset_extent - H5.H5Dread: ", extend_dset_data[3][6] == 12);
assertTrue("testH5Dset_extent - H5.H5Dread: ", extend_dset_data[4][8] == 99);
}
}
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